DOI: 10.1073/pnas.0307969100. The <i>Arabidopsis</i> double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation

The Arabidopsis double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation

10.1073/pnas.0307969100

Crossref journal-article

Proceedings of the National Academy of Sciences

Proceedings of the National Academy of Sciences (341)

Abstract

The Arabidopsis HYL1 gene encodes a nuclear double-stranded RNA-binding protein. A knockout mutation of the hyl1 gene is recessive and pleiotropic, causing developmental abnormalities, increasing sensitivity to abscisic acid, and reducing sensitivity to auxin and cytokinin. We report that levels of several microRNAs (miRNAs; miR159, -167, and -171) are reduced in homozygous mutant plants, and levels of two of three tested target mRNAs are elevated. Conversely, the miRNA levels are elevated in plants expressing a HYL1 cDNA from a strong promoter, and the corresponding target RNAs are reduced. These changes result from alterations in the stability of the target RNAs. However, double-stranded RNA-induced posttranscriptional gene silencing is unaffected by the hyl1 mutation. One-third to one-half of the cellular HYL1 protein is in a macromolecular complex, and a GFP-HYL1 fusion protein is found predominantly in the nucleus, although it is observed in both nucleus and cytoplasm in some cells. Within nuclei, HYL1 is associated with subnuclear bodies and ring-like structures. These observations provide evidence that the HYL1 protein is part of a nuclear macromolecular complex that is involved in miRNA-mediated gene regulation. Because hyl1 mutants show marked abnormalities in hormone responses, these results further suggest that miRNA-mediated changes in mRNA stability play a vital role in plant hormone signaling.

Bibliography

Han, M.-H., Goud, S., Song, L., & Fedoroff, N. (2004). The Arabidopsis double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation. Proceedings of the National Academy of Sciences, 101(4), 1093â1098.

Authors 4

Meng-Hsuan Han (first)
Saiprasad Goud (additional)
Liang Song (additional)
Nina Fedoroff (additional)

References 52 Referenced 427

10.1016/S1097-2765(03)00352-6
10.1016/S0074-7696(02)19011-5
Bernstein, E., Denli, A. M. & Hannon, G. J. (2001) RNA 7, 1509–1521.11720281 / RNA (2001)
10.1101/gad.1127103
10.1073/pnas.1630797100
10.1126/science.1064921
10.1038/nature01958
10.1105/tpc.016238
10.1016/S0960-9822(02)00809-6
10.1126/science.1065062
10.1126/science.1065329
10.1105/tpc.003210
10.1101/gad.974702
10.1016/S0960-9822(02)01017-5
10.1101/gad.1004402
Jacobsen, S. E., Running, M. P. & Meyerowitz, E. M. (1999) Development (Cambridge, U.K.) 126, 5231–5243. / Development (Cambridge, U.K.) (1999)
10.1016/S0092-8674(01)00431-7
10.1126/science.1073827
10.1016/S1360-1385(02)02355-5
10.1038/nature01957
10.1016/S0960-9822(03)00293-8
10.1126/science.1076311
Chen X. (September 11 2003) Science 10.1126/ science.1088060 .
10.1101/gad.1064703
10.1016/0092-8674(93)90529-Y
10.1016/0092-8674(93)90530-4
10.1038/35002607
10.1261/rna.5980303
10.1016/S1534-5807(03)00025-X
10.1105/tpc.12.12.2351
10.1073/pnas.242607499
10.1016/S0092-8674(02)00793-6
10.1126/science.1088710
10.1073/pnas.97.26.14813
10.1093/emboj/19.13.3366
10.1046/j.1365-313X.1996.10030479.x
10.1016/S0960-9822(03)00281-1
10.1006/abio.1994.1112
10.1016/S0092-8674(02)00863-2
10.1104/pp.103.023630
10.1104/pp.010820
Abel, S. & Theologis, A. (1998) Methods Mol. Biol. 82, 209–217.9664427 / Methods Mol. Biol. (1998)
10.1073/pnas.97.6.2940
10.1016/S0960-9822(02)00792-3
10.1146/annurev.cellbio.16.1.273
10.1091/mbc.10.7.2297
10.1002/j.1460-2075.1996.tb00513.x
10.1016/S1369-5266(03)00084-0
10.1016/S1369-5266(02)00280-7
10.1104/pp.010442
10.1105/tpc.008417
10.1016/S1369-5266(00)00189-8

Dates

Type	When
Created	21 years, 6 months ago (Jan. 27, 2004, 1:23 p.m.)
Deposited	3 years, 4 months ago (April 12, 2022, 8:47 a.m.)
Indexed	34 minutes ago (Aug. 27, 2025, 9:48 a.m.)
Issued	21 years, 7 months ago (Jan. 13, 2004)
Published	21 years, 7 months ago (Jan. 13, 2004)
Published Online	21 years, 7 months ago (Jan. 13, 2004)
Published Print	21 years, 7 months ago (Jan. 27, 2004)

Funders 0

None

BibTeX

@article{Han_2004, title={The Arabidopsis double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation}, volume={101}, ISSN={1091-6490}, url={http://dx.doi.org/10.1073/pnas.0307969100}, DOI={10.1073/pnas.0307969100}, number={4}, journal={Proceedings of the National Academy of Sciences}, publisher={Proceedings of the National Academy of Sciences}, author={Han, Meng-Hsuan and Goud, Saiprasad and Song, Liang and Fedoroff, Nina}, year={2004}, month=jan, pages={1093–1098} }

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